Locus 6478

Sequence ID X_DroMel_CAF1
Location 16,257,743 – 16,257,902
Length 159
Max. P 0.847888
window10575 window10576 window10577

overview

Window 5

Location 16,257,743 – 16,257,862
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.82
Mean single sequence MFE -36.66
Consensus MFE -33.50
Energy contribution -33.10
Covariance contribution -0.40
Combinations/Pair 1.06
Mean z-score -1.27
Structure conservation index 0.91
SVM decision value 0.13
SVM RNA-class probability 0.598469
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16257743 119 - 22224390
CCUCACUUUUCCAUUCUGUCCAGCGAACGGGUGUGGCCACCGCCUCAUCCUUCCACUGACCAUUUGGGAUCUGUGUGUAUAACUGUUAAUGGUGUCCAACCACCAGAGCACCG-GAGUGC
...(((..(((((...((..(((.(((.(((((.(((....))).))))))))..)))..))..)))))((((.((((....(((....((((.....)))).))).))))))-))))). ( -35.80)
>DroSec_CAF1 6068 119 - 1
CCUCACUUUUCCAUUCUGUCCAACGAACGGGUGUGGCCACCGCCUCAUCCUUCCACUGACCAUUUGGGAUCUGUGUGUAUAACUGUUAAUGGUGUCCAACCACCAGAGCACCG-GAGUGC
...(((..(((((....(((....(((.(((((.(((....))).))))))))....)))....)))))((((.((((....(((....((((.....)))).))).))))))-))))). ( -34.70)
>DroSim_CAF1 5963 119 - 1
CCUCACUUUUCCAUUCUGUCCAGCGAACGGGUGUGGCCACCGCCUCAUCCUUCCACUGACCAUUUGGGAUCUGUGUGUAUAACUGUUAAUGGUGUCCAACCACCAGAGCACCG-GAGUGC
...(((..(((((...((..(((.(((.(((((.(((....))).))))))))..)))..))..)))))((((.((((....(((....((((.....)))).))).))))))-))))). ( -35.80)
>DroEre_CAF1 6157 119 - 1
CCUCACUUUUCCGUUCUGUCCAGCGAACGGGUGUGGCCACUGCCUCAUCCUUCCACUGGCCAUUUGGGAUCUGUGUGUAUAACUGUUAAUGGUGUCCAACCACCAGAGCACCG-GAGUGC
...(((..(((((...((.((((.(((.(((((.(((....))).))))))))..)))).))..)))))((((.((((....(((....((((.....)))).))).))))))-))))). ( -37.90)
>DroYak_CAF1 5981 120 - 1
CCUCACUUUUCCAUACUGUCCAGCGAACGGGUGUGGCCACCGCCUCAUCCUUCCACUGGCCAUUUGGGAUCUGUGUGUAUAACUGUUAAUGGUGUCCAACCACCAGAGCACCGGGAGUGC
...((((((((((...((.((((.(((.(((((.(((....))).))))))))..)))).))..))))).(((.((((....(((....((((.....)))).))).)))))))))))). ( -39.10)
>consensus
CCUCACUUUUCCAUUCUGUCCAGCGAACGGGUGUGGCCACCGCCUCAUCCUUCCACUGACCAUUUGGGAUCUGUGUGUAUAACUGUUAAUGGUGUCCAACCACCAGAGCACCG_GAGUGC
.(.(((..(((((....(((....(((.(((((.(((....))).))))))))....)))....)))))...))).)............(((((......)))))..((((.....)))) (-33.50 = -33.10 +  -0.40)

alignment

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secondary structure

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dotplot

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Window 6

Location 16,257,782 – 16,257,902
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.92
Mean single sequence MFE -39.39
Consensus MFE -32.78
Energy contribution -33.02
Covariance contribution 0.24
Combinations/Pair 1.15
Mean z-score -1.55
Structure conservation index 0.83
SVM decision value 0.68
SVM RNA-class probability 0.820768
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16257782 120 + 22224390
AUACACACAGAUCCCAAAUGGUCAGUGGAAGGAUGAGGCGGUGGCCACACCCGUUCGCUGGACAGAAUGGAAAAGUGAGGUUACGGAUGAUGCCGAGUAACCAUUGGGCAGUGGGCAUUG
.........(((((((..((.(((((((....((..((((((((((.(((((((((........))))))....))).))))))......))))..))..))))))).)).)))).))). ( -38.90)
>DroSec_CAF1 6107 120 + 1
AUACACACAGAUCCCAAAUGGUCAGUGGAAGGAUGAGGCGGUGGCCACACCCGUUCGUUGGACAGAAUGGAAAAGUGAGGUUACGGAUGAUGUCGAUUAGCCAUUGGGCAGUGGGCAUUG
.........(((((((..((.(((((((...(((..((((((((((.(((((((((........))))))....))).))))))......)))).)))..))))))).)).)))).))). ( -37.40)
>DroSim_CAF1 6002 120 + 1
AUACACACAGAUCCCAAAUGGUCAGUGGAAGGAUGAGGCGGUGGCCACACCCGUUCGCUGGACAGAAUGGAAAAGUGAGGUUACGGAUGAUGCCGAGUAGCCAUUGGGCAGUGGGCAUUG
.....(((...(((....((..(((((((.((.((.(((....))).)).)).)))))))..))....)))...)))...........((((((.(.(.(((....)))).).)))))). ( -40.80)
>DroEre_CAF1 6196 120 + 1
AUACACACAGAUCCCAAAUGGCCAGUGGAAGGAUGAGGCAGUGGCCACACCCGUUCGCUGGACAGAACGGAAAAGUGAGGUUACGGAUGAUGUCGAGAAGCCAUGGGCCAUGGGGCAUUG
.........(.(((((..(((((.((((........((((((((((.(((((((((........))))))....))).))))))......))))......)))).))))))))))).... ( -41.94)
>DroYak_CAF1 6021 113 + 1
AUACACACAGAUCCCAAAUGGCCAGUGGAAGGAUGAGGCGGUGGCCACACCCGUUCGCUGGACAGUAUGGAAAAGUGAGGUUACGGAUGAUGCCGAGUAGCUAUUGG-------GCAUUG
.....(((...(((....((.((((((((.((.((.(((....))).)).)).)))))))).))....)))...)))...........((((((.(((....))).)-------))))). ( -37.90)
>consensus
AUACACACAGAUCCCAAAUGGUCAGUGGAAGGAUGAGGCGGUGGCCACACCCGUUCGCUGGACAGAAUGGAAAAGUGAGGUUACGGAUGAUGCCGAGUAGCCAUUGGGCAGUGGGCAUUG
.........((((((...((.(((((((........((((((((((.(((((((((........))))))....))).))))))......))))......))))))).))..))).))). (-32.78 = -33.02 +   0.24)

alignment

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secondary structure

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dotplot

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Window 7

Location 16,257,782 – 16,257,902
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.92
Mean single sequence MFE -33.19
Consensus MFE -25.82
Energy contribution -26.70
Covariance contribution 0.88
Combinations/Pair 1.09
Mean z-score -1.97
Structure conservation index 0.78
SVM decision value 0.78
SVM RNA-class probability 0.847888
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16257782 120 - 22224390
CAAUGCCCACUGCCCAAUGGUUACUCGGCAUCAUCCGUAACCUCACUUUUCCAUUCUGUCCAGCGAACGGGUGUGGCCACCGCCUCAUCCUUCCACUGACCAUUUGGGAUCUGUGUGUAU
..((((.(((..(((((.((((((..((......))))))))..............((..(((.(((.(((((.(((....))).))))))))..)))..)).)))))....))).)))) ( -35.50)
>DroSec_CAF1 6107 120 - 1
CAAUGCCCACUGCCCAAUGGCUAAUCGACAUCAUCCGUAACCUCACUUUUCCAUUCUGUCCAACGAACGGGUGUGGCCACCGCCUCAUCCUUCCACUGACCAUUUGGGAUCUGUGUGUAU
..((((.(((..((((((((......((((..........................))))....(((.(((((.(((....))).))))))))......))).)))))....))).)))) ( -29.47)
>DroSim_CAF1 6002 120 - 1
CAAUGCCCACUGCCCAAUGGCUACUCGGCAUCAUCCGUAACCUCACUUUUCCAUUCUGUCCAGCGAACGGGUGUGGCCACCGCCUCAUCCUUCCACUGACCAUUUGGGAUCUGUGUGUAU
..(((((....(((....))).....)))))........((..(((..(((((...((..(((.(((.(((((.(((....))).))))))))..)))..))..)))))...))).)).. ( -35.20)
>DroEre_CAF1 6196 120 - 1
CAAUGCCCCAUGGCCCAUGGCUUCUCGACAUCAUCCGUAACCUCACUUUUCCGUUCUGUCCAGCGAACGGGUGUGGCCACUGCCUCAUCCUUCCACUGGCCAUUUGGGAUCUGUGUGUAU
......(((((((((..(((................................((((........))))(((((.(((....))).)))))..)))..)))))..))))............ ( -33.20)
>DroYak_CAF1 6021 113 - 1
CAAUGC-------CCAAUAGCUACUCGGCAUCAUCCGUAACCUCACUUUUCCAUACUGUCCAGCGAACGGGUGUGGCCACCGCCUCAUCCUUCCACUGGCCAUUUGGGAUCUGUGUGUAU
..((((-------(............)))))........((..(((..(((((...((.((((.(((.(((((.(((....))).))))))))..)))).))..)))))...))).)).. ( -32.60)
>consensus
CAAUGCCCACUGCCCAAUGGCUACUCGGCAUCAUCCGUAACCUCACUUUUCCAUUCUGUCCAGCGAACGGGUGUGGCCACCGCCUCAUCCUUCCACUGACCAUUUGGGAUCUGUGUGUAU
..(((((....(((....))).....)))))........((..(((..(((((....(((....(((.(((((.(((....))).))))))))....)))....)))))...))).)).. (-25.82 = -26.70 +   0.88)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:47 2006